miRNA display CGI


Results 1 - 20 of 35 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
23433 3' -58.9 NC_005259.1 + 31982 0.66 0.58816
Target:  5'- aCAGCGGUGaCGGCCAUagcacacaGGGUaucgCGAc -3'
miRNA:   3'- gGUCGCCGC-GCCGGUAg-------UUCGa---GCUa -5'
23433 3' -58.9 NC_005259.1 + 2159 0.66 0.577589
Target:  5'- gCCAGCGGCGuCGaGCCGcCGGuuGC-CGAg -3'
miRNA:   3'- -GGUCGCCGC-GC-CGGUaGUU--CGaGCUa -5'
23433 3' -58.9 NC_005259.1 + 41365 0.66 0.56706
Target:  5'- cCCAGCacaGCGuGCgGUCGAGCUUGGc -3'
miRNA:   3'- -GGUCGccgCGC-CGgUAGUUCGAGCUa -5'
23433 3' -58.9 NC_005259.1 + 65874 0.66 0.56706
Target:  5'- cCCGGUGGgGCGGUCaAUCGgcGGgaCGGUc -3'
miRNA:   3'- -GGUCGCCgCGCCGG-UAGU--UCgaGCUA- -5'
23433 3' -58.9 NC_005259.1 + 16797 0.66 0.56706
Target:  5'- --cGCGGuCGCGuaCAUCGcGCUCGGg -3'
miRNA:   3'- gguCGCC-GCGCcgGUAGUuCGAGCUa -5'
23433 3' -58.9 NC_005259.1 + 21919 0.66 0.556581
Target:  5'- aCCAGC-GCGaggcagucgaGGCCAUCGAGuCUCa-- -3'
miRNA:   3'- -GGUCGcCGCg---------CCGGUAGUUC-GAGcua -5'
23433 3' -58.9 NC_005259.1 + 53526 0.66 0.556581
Target:  5'- gCCAGCGGCaCGGgC-UCGgugcccggugucGGCUCGGg -3'
miRNA:   3'- -GGUCGCCGcGCCgGuAGU------------UCGAGCUa -5'
23433 3' -58.9 NC_005259.1 + 56438 0.66 0.556581
Target:  5'- gCAGCGaGCGCcgGGCCAcgcagcUCAGGgUUGAc -3'
miRNA:   3'- gGUCGC-CGCG--CCGGU------AGUUCgAGCUa -5'
23433 3' -58.9 NC_005259.1 + 51136 0.66 0.556581
Target:  5'- aCCGuCGGgGCGGCCAUgAGcgcGUUCGGg -3'
miRNA:   3'- -GGUcGCCgCGCCGGUAgUU---CGAGCUa -5'
23433 3' -58.9 NC_005259.1 + 8990 0.66 0.55032
Target:  5'- gCCAGCGGCGaCGGCagccgccuCGUCAcggGucagacguacgcgguGCUCGAUc -3'
miRNA:   3'- -GGUCGCCGC-GCCG--------GUAGU---U---------------CGAGCUA- -5'
23433 3' -58.9 NC_005259.1 + 32916 0.66 0.546158
Target:  5'- cCCGGCccgcucgGGCGCGGCgguauCGUCAccauccccugucgcuGCUCGAUg -3'
miRNA:   3'- -GGUCG-------CCGCGCCG-----GUAGUu--------------CGAGCUA- -5'
23433 3' -58.9 NC_005259.1 + 49584 0.66 0.535799
Target:  5'- aCCGGCgGGCGgGGUCAgcaccUCGAcCUCGGg -3'
miRNA:   3'- -GGUCG-CCGCgCCGGU-----AGUUcGAGCUa -5'
23433 3' -58.9 NC_005259.1 + 1986 0.67 0.522436
Target:  5'- aCgAGCGGUcggaguacaacuacGCGGCCAUCGGGUggCGc- -3'
miRNA:   3'- -GgUCGCCG--------------CGCCGGUAGUUCGa-GCua -5'
23433 3' -58.9 NC_005259.1 + 52383 0.67 0.515295
Target:  5'- gCGGCuGCGCagccugccucgGGCCAUCGAggugugggcGCUCGAc -3'
miRNA:   3'- gGUCGcCGCG-----------CCGGUAGUU---------CGAGCUa -5'
23433 3' -58.9 NC_005259.1 + 32322 0.67 0.495115
Target:  5'- gCAGUGcccgccaauuguGCGCGGCCAUCAacgcgAGgUUGAUg -3'
miRNA:   3'- gGUCGC------------CGCGCCGGUAGU-----UCgAGCUA- -5'
23433 3' -58.9 NC_005259.1 + 26823 0.67 0.495115
Target:  5'- aCCGGCGGUggugccGgGGCgGUCu-GCUCGGg -3'
miRNA:   3'- -GGUCGCCG------CgCCGgUAGuuCGAGCUa -5'
23433 3' -58.9 NC_005259.1 + 44558 0.67 0.485161
Target:  5'- aCCGGCaGGCaGCGcGCCGaccggCAGGCUCa-- -3'
miRNA:   3'- -GGUCG-CCG-CGC-CGGUa----GUUCGAGcua -5'
23433 3' -58.9 NC_005259.1 + 570 0.68 0.455893
Target:  5'- aCCA-CGGCGUGGggGUCGAGCUaCGAc -3'
miRNA:   3'- -GGUcGCCGCGCCggUAGUUCGA-GCUa -5'
23433 3' -58.9 NC_005259.1 + 5729 0.68 0.445402
Target:  5'- aCGGCGGCcauucucGCGGCCAagcggCGAGCUgccUGAa -3'
miRNA:   3'- gGUCGCCG-------CGCCGGUa----GUUCGA---GCUa -5'
23433 3' -58.9 NC_005259.1 + 60274 0.68 0.43692
Target:  5'- aCCAGCGcugccGgGCGGCCAUCGucgUCGGUg -3'
miRNA:   3'- -GGUCGC-----CgCGCCGGUAGUucgAGCUA- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.